Extremophiles最新文献_第2页

ABC-type salt tolerance transporter genes are abundant and mutually shared among the microorganisms of the hypersaline Sambhar Lake. abc型耐盐转运基因在桑巴湖高盐微生物中丰富且相互共享。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-01-28 DOI: 10.1007/s00792-025-01378-2

Srikanta Pal, Raju Biswas, Abhijit Sar, Arijit Misra, Somasri Dam, Bomba Dam

{"title":"ABC-type salt tolerance transporter genes are abundant and mutually shared among the microorganisms of the hypersaline Sambhar Lake.","authors":"Srikanta Pal, Raju Biswas, Abhijit Sar, Arijit Misra, Somasri Dam, Bomba Dam","doi":"10.1007/s00792-025-01378-2","DOIUrl":"10.1007/s00792-025-01378-2","url":null,"abstract":"To fish-out novel salt-tolerance genes, metagenomic DNA of moderately saline sediments of India's largest hypersaline Sambhar Lake was cloned in fosmid. Two functionally-picked clones helped the Escherichia coli host to tolerate 0.6 M NaCl. Deep sequencing of their fosmid DNA insert revealed 32-37% of genes to encode transporters, mostly belonging to ABC (ATP-Binding Cassette)-type, but none specific to channel Na+. The complete metagenome sequence of Sambhar Lake brines, and reanalysed data of twelve other hypersaline metagenome sequences, however, have only around 5% transporter genes, suggesting metagenomic DNA fragments being biasedly-cloned during functional screening. Almost half of the ~ 40 Kb inserts in the two clones was shared, and encode several transporters, and some transposase. This advocates that these transporter-loaded DNA lengths are shuttled among microorganisms of hypersaline environments. Interestingly, one clone showed retarded growth with prominent cell disruptions in scanning electron microscopic images, when fosmid copy number was increased or transporters were NaCl-induced. Its cloned insert exclusively has three genes, encoding a structurally functional ATP-binding protein and its efflux component, whose possible overexpression led to membrane crowding and cell rupture. Thus, microorganisms thriving in hypersaline lakes have plentiful ABC transporters that are mutually shared among themselves. These novel salt tolerance genes have future agricultural biotechnological potential.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"14"},"PeriodicalIF":2.6,"publicationDate":"2025-01-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143052105","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Halobellus marinus sp. nov., Halobellus ordinarius sp. nov., Halobaculum rarum sp. nov., and Halorarum halobium sp. nov., halophilic archaea isolated from marine solar salt and a saline lake. 从海洋太阳盐和盐湖中分离出的嗜盐古菌——海洋盐藻、普通盐藻、稀有盐藻和盐藻。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-01-27 DOI: 10.1007/s00792-025-01379-1

Ling-Rui Zhu, Chidiebele Nwankwo, Jing Hou, Heng-Lin Cui

{"title":"Halobellus marinus sp. nov., Halobellus ordinarius sp. nov., Halobaculum rarum sp. nov., and Halorarum halobium sp. nov., halophilic archaea isolated from marine solar salt and a saline lake.","authors":"Ling-Rui Zhu, Chidiebele Nwankwo, Jing Hou, Heng-Lin Cui","doi":"10.1007/s00792-025-01379-1","DOIUrl":"10.1007/s00792-025-01379-1","url":null,"abstract":"Four halophilic archaeal strains were isolated from sea salt and a saline lake in China. Based on phylogenetic and phylogenomic analyses, the four strains are related to the genera of Halobellus, Halobaculum, and Halorarum within the family Haloferacaceae. The four strains possess genes responsible for carotenoid synthesis, maintenance of a high internal salt concentration, as well as diverse enzymes with biotechnological potential. The average nucleotide identity (ANI), average amino acid identity (AAI), and digital DNA-DNA hybridization (dDDH) values among these four strains and their related species were lower than the established thresholds proposed for species demarcation. Strains DFY28T, ZY16T, QDC11T, and XH14T were distinguished from related species based on a variety of phenotypic characteristics. The major polar lipids of these four strains were similar to those of respective relatives within the genera Halobellus, Halobaculum, and Halorarum. The phenotypic, phylogenetic, and genome-based analyses suggest that strains DFY28T (= CGMCC 1.17470T = JCM 34310T), ZY16T (= CGMCC 1.17476T = JCM 34311T), QDC11T (= MCCC 4K00127T = KCTC 4308T), and XH14T (= CGMCC 1.17028T = JCM 34145T) represent four novel species of the genera Halobellus, Halobaculum and Halorarum, for which the names Halobellus marinus sp. nov., Halobellus ordinarius sp. nov., Halobaculum rarum sp. nov., and Halorarum halobium sp. nov. are proposed.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"13"},"PeriodicalIF":2.6,"publicationDate":"2025-01-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143046121","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genomic highlights of the phylogenetically unique halophilic purple nonsulfur bacterium, Rhodothalassium salexigens. 系统发育上独特的嗜盐紫色非硫细菌Rhodothalassium salexigens的基因组亮点。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-01-25 DOI: 10.1007/s00792-025-01380-8

Michael T Madigan, Kelly S Bender, Mary N Parenteau, Yukihiro Kimura, Zheng-Yu Wang-Otomo, W Matthew Sattley

{"title":"Genomic highlights of the phylogenetically unique halophilic purple nonsulfur bacterium, Rhodothalassium salexigens.","authors":"Michael T Madigan, Kelly S Bender, Mary N Parenteau, Yukihiro Kimura, Zheng-Yu Wang-Otomo, W Matthew Sattley","doi":"10.1007/s00792-025-01380-8","DOIUrl":"10.1007/s00792-025-01380-8","url":null,"abstract":"Rhodothalassium (Rts.) salexigens is a halophilic purple nonsulfur bacterium and the sole species in the genus Rhodothalassium, which is itself the sole genus in the family Rhodothalassiaceae and sole family in the order Rhodothalassiales (class Alphaproteobacteria). The genome of this phylogenetically unique phototroph comprises 3.35 Mb and is highly chimeric, with nearly half of its genes originating from families other than the Rhodothalassiaceae, many of which lack phototrophic species. Photosynthesis genes in Rts. salexigens are not arranged in a typical photosynthesis gene cluster but are scattered across the genome, suggesting an origin from horizontal transfers. Despite an encoded RuBisCO, autotrophy has not been observed in Rts. salexigens, and enzymes that oxidize common inorganic electron donors are not encoded. Phospholipid biosynthesis in Rts. salexigens is restricted, and phosphoglycerolipids are the only phospholipids present in its intracytoplasmic membranes. Rts. salexigens fixes nitrogen using a Mo-containing nitrogenase and uses ammonia despite previous results that indicated it was a glutamate auxotroph. Glycine betaine is the sole osmolyte in Rts. salexigens, and enzymes are encoded that facilitate both its uptake and its biosynthesis from glycine. The genomic data also support chemotactic swimming motility, growth over a range of salinities, and the production of membrane-strengthening hopanoids.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"12"},"PeriodicalIF":2.6,"publicationDate":"2025-01-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11762602/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143037780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mechanism of decolorization and degradation of direct brown D3G by a halo-thermophilic consortium. 直接棕色D3G脱色降解机理研究。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-12-23 DOI: 10.1007/s00792-024-01376-w

Wenying Wang, Zuotao Zhang, Meichen Sun, Chenlai Li, Mengdi Yan, Chongyang Wang

{"title":"Mechanism of decolorization and degradation of direct brown D3G by a halo-thermophilic consortium.","authors":"Wenying Wang, Zuotao Zhang, Meichen Sun, Chenlai Li, Mengdi Yan, Chongyang Wang","doi":"10.1007/s00792-024-01376-w","DOIUrl":"10.1007/s00792-024-01376-w","url":null,"abstract":"Azo dye wastewater has garnered significant attention from researchers because of its association with high-temperature, high-salt, and high-alkali conditions. In this study, consortium ZZ efficiently decolorized brown D3G under halophilic and thermophilic conditions. he results indicated that consortium ZZ, which was mainly dominated by Marinobacter, Bacillus, and Halomonas, was achieved decolorization rates ranging from 1 to 10% at temperatures between 40 °C and 50 °C, while maintaining a pH range of 7 to 10 for direct brown D3G degradation. Through the comprehensive utilization of UV-vis spectral analysis, Fourier transform infrared (FTIR), gas chromatography mass spectrometric (GC-MS) techniques, as well as metagenomic analysis, the decolorization and degradation pathway of direct brown by consortium ZZ was proposed. The azo dye reductase, lignin peroxidase, and laccase were also highly expressed in the decolorization process. Additionally, phytotoxicity tests using seeds of Cucumis sativus and Oryza sativa revealed that the intermediates generated showed no significant toxicity compared with distilled water. This investigation elucidated the pivotal contribution of consortium ZZ to azo dye degradation and provided novel theoretical insights along with practical guidance for azo dye treatment at halo-thermophilic conditions.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"11"},"PeriodicalIF":2.6,"publicationDate":"2024-12-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142876609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Insights into the dynamics and evolution of Rummeliibacillus stabekisii prophages in extreme environments: from Antarctic soil to spacecraft floors. 从南极土壤到航天器地板的极端环境中，对稳定瘤杆菌前体的动力学和进化的见解。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-12-21 DOI: 10.1007/s00792-024-01377-9

Caroline Martiniuc, Igor Taveira, Fernanda Abreu, Anderson S Cabral, Rodolfo Paranhos, Lucy Seldin, Diogo Jurelevicius

{"title":"Insights into the dynamics and evolution of Rummeliibacillus stabekisii prophages in extreme environments: from Antarctic soil to spacecraft floors.","authors":"Caroline Martiniuc, Igor Taveira, Fernanda Abreu, Anderson S Cabral, Rodolfo Paranhos, Lucy Seldin, Diogo Jurelevicius","doi":"10.1007/s00792-024-01377-9","DOIUrl":"10.1007/s00792-024-01377-9","url":null,"abstract":"Since prophages can play a multifaceted role in bacterial evolution, this study aims to characterize the virome of Rummeliibacillus stabekisii, a bacterium isolated from different environments, including Antarctic soil and NASA spacecraft floors. From the analyses, it was found that the Antarctic strain, PP9, had the largest number of prophages, including intact ones, indicating potential benefits for survival in adverse conditions. In contrast, other strains harbored predominantly degenerate prophages, suggesting a dynamic process of gene gain and loss during evolution. Furthermore, strain PP9 exhibited polylysogeny, a strategy capable of increasing its competitive advantage by providing a broader spectrum of defensive mechanisms. In addition, evidence demonstrates that prophage regions in PP9 act as hotspots for recombination events, favoring the insertion of different phages and possible antimicrobial resistance genes. Finally, lytic cycle induction experiments revealed at least two intact prophages active in PP9. In this way, understanding the interaction between viruses and bacteria can provide valuable information about microbial evolution and adaptation in extreme environments, such as Antarctica.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"10"},"PeriodicalIF":2.6,"publicationDate":"2024-12-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142871903","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Unraveling the effects of polyhydroxyalkanoates accumulation in Pseudomonas extremaustralis growth and survival under different pH conditions. 不同pH条件下聚羟基烷酸盐积累对极端假单胞菌生长和存活的影响。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-12-19 DOI: 10.1007/s00792-024-01375-x

María Gabriela Brito, Nancy I López, Laura J Raiger Iustman

{"title":"Unraveling the effects of polyhydroxyalkanoates accumulation in Pseudomonas extremaustralis growth and survival under different pH conditions.","authors":"María Gabriela Brito, Nancy I López, Laura J Raiger Iustman","doi":"10.1007/s00792-024-01375-x","DOIUrl":"10.1007/s00792-024-01375-x","url":null,"abstract":"Polyhydroxyalkanoates (PHAs) are intracellular polymers that enhance bacterial fitness against various environmental stressors. Pseudomonas extremaustralis 14-3b is an Antarctic bacterium capable of accumulating, short-chain-length PHAs (sclPHAs), composed of C3-C5 monomers, as well as medium-chain-length PHAs (mclPHAs) containing ≥ C6 monomers. Since pH changes are pivotal in bacterial physiology, influencing microbial growth and metabolic processes, we propose that accumulated PHA increases P. extremaustralis fitness to cope with pH changes. To test this, we analyzed the production of sclPHA and mclPHA at different pH levels and its effect on bacterial survival against pH stress. P. extremaustralis was able to grow and accumulate PHA when the culture media pH ranged from 6.0 to 9.5, showing a marked loss of viability outside this range. Additionally, based on the analysis of different PHA-deficient mutants, we found that when exposed to both acidic and alkaline conditions, sclPHA and mclPHA conferred different protection against pH stress, with sclPHA making the main contribution. These results highlight the importance of PHA in supporting survival in pH-stressful environments.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"9"},"PeriodicalIF":2.6,"publicationDate":"2024-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142853071","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Variations on a theme: non-canonical DUF3494 ice-binding proteins. 一个主题的变体：非规范DUF3494冰结合蛋白。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-12-13 DOI: 10.1007/s00792-024-01374-y

James A Raymond

{"title":"Variations on a theme: non-canonical DUF3494 ice-binding proteins.","authors":"James A Raymond","doi":"10.1007/s00792-024-01374-y","DOIUrl":"10.1007/s00792-024-01374-y","url":null,"abstract":"Among the many ice-binding proteins (IBPs) found in microorganisms (bacteria, archaea, fungi and algae), the canonical DUF3494 beta-barrel type is the most common. Until now, little variation has been found in this structure: an initial coil leads into an alpha helix that directs the following coils into a reverse stack, with the final coil ending up next to the initial coil. Here, I show that there exist many bacterial proteins whose AlphaFold-predicted structures deviate from the DUF3494 structure so that they are not recognized as belonging to an existing DUF or Pfam family. In these non-canonical DUF3494 (ncDUF3494) proteins, the number of coils in the alpha helix is highly variable, often being as high as 14. The putative ice-binding sides of each of 13 proteins modeled have a well-aligned row of hydrophilic residues, with spacings that are close to the repeat distance on the ice a-axis. A recombinant protein made for one of the proteins showed that it had ice-binding activity, even in the µg/ml range. The ncDUF3494 proteins appear to be found only in bacteria, the great majority of which live in icy habitats. C-terminal PEP-Cterm motifs, which are rare in DUF3494s, are present in most of the ncDUF3494s, possibly indicating a secretory function. The relatively narrow distribution of ncDUF3494 proteins suggests that they are a later development in DUF3494 evolution.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"8"},"PeriodicalIF":2.6,"publicationDate":"2024-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11645318/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142817296","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Characterization of a family IV esterase from extremely halophilic archaeon Haloarcula japonica. 极嗜盐古菌日本盐环菌IV家族酯酶的鉴定。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-12-03 DOI: 10.1007/s00792-024-01370-2

Hiromichi Kato, Shota Ambai, Fumiya Ikeda, Koji Abe, Satoshi Nakamura, Rie Yatsunami

引用次数: 0

Biological treatment of methyl orange dye and textile wastewater using halo-alkaliphilic bacteria under highly alkaline conditions. 在高碱性条件下利用卤代嗜碱性细菌对甲基橙染料和纺织废水进行生物处理。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-11-27 DOI: 10.1007/s00792-024-01369-9

Gunisha Wadhawan, Anshu Gupta

{"title":"Biological treatment of methyl orange dye and textile wastewater using halo-alkaliphilic bacteria under highly alkaline conditions.","authors":"Gunisha Wadhawan, Anshu Gupta","doi":"10.1007/s00792-024-01369-9","DOIUrl":"10.1007/s00792-024-01369-9","url":null,"abstract":"As the textile wastewater is highly saline and has high pH it is important to employ extremophilic microbes to survive in harsh conditions and provide effective bioremediation of textile dyes. This study aims to find a sustainable solution for dye removal by investigating the potential of an indigenously isolated bacterium, Nesterenkonia lacusekhoensis EMLA3 (halo-alkaliphilic) for treatment of an azo dye, methyl orange (MO) and textile effluent. MO dye decolorization studies were conducted using mineral salt media (MSM) by varying incubation time (0-120 h), initial dye concentration (50-350 mg/L), pH (7.0-12.0), inoculum dose (3-10%), agitation (stationary, 100 rpm and 200 rpm), and temperature (20-55 °C). Dye removal by the bacterium for 50 mg/L of dye was > 97.0% within 72 h of incubation at pH 11.0 in stationary condition. Bacterium had excellent reusability i.e. > 97% dye removal for up to 5 cycles. Moreover, bacterium has the potential for co-removal of chromium (VI) (3.5-28 mg/L), and also almost complete dye removal in presence of high amount of NaCl. Liquid chromatography-mass spectrometry showed degradation as the mechanism of dye removal. Application of the bacterium to MO dye spiked real textile wastewater showed excellent dye removal. Phyto-toxicity assessment conducted on Vigna radiata and Triticum aestivum seeds, showed 100% germination of biotreated textile wastewater indicating its reuse potential.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"6"},"PeriodicalIF":2.6,"publicationDate":"2024-11-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142727124","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Lawrence I. (Larry) Hochstein a researcher dedicated to halophilic microorganisms of all types and environments. Lawrence I. (Larry) Hochstein 致力于研究各种类型和环境中的嗜卤微生物。

IF 2.6 3区生物学

Extremophiles Pub Date : 2024-11-26 DOI: 10.1007/s00792-024-01364-0

Russell H Vreeland, Aharon Oren, Antonio Ventosa

引用次数: 0